Documentation read from 04/17/2019 22:07:28 version of /vol/public-pseed/FIGdisk/FIG/bin/svr_taxonomically_related_genomes.
svr_taxonomically_related_genomes [-c] [-d depth] < genome_ids > expanded_genome_ids
Get a list of genomes that are taxonomically related to the input genomes.
Usage: svr_taxonomically_related_genomes [-c] [-d depth] < genome_ids > expanded_genome_ids
-c turn on caching; fetch taxonomy data over sapling only once -d taxonomy level (D = 7, species) -t show taxonomy hierarchy of the input genomes If genome IDs are found in the command line, STDIN is not read. Examples: 1. Get all Bacillus genomes svr_taxonomically_related_genomes -d 6 224308.1 2. Get all Escherichia coli genomes using cached taxonomy info svr_taxonomically_related_genomes -d -1 -c -t 83333.1
Turn on caching; fetch taxonomy data over sapling only once.
Taxonomy level. (1: Kindom, 2: Phylum, 3: Class, 4: Order, 5: Family, 6: Genus, 7: Species, 8: Strain)
Use negative numbers to go up from the highest taxonomy level.
Show taxonomy hierarchy of the query genomes.
The input is a list of genome IDs supplied in the command line or read from STDIN.
The output is a list of related genome IDs written to STDOUT.